DRM2 domains rearranged methyltransferase 2 [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Symbol: DRM2
Official Full Name: domains rearranged methyltransferase 2
Primary source: TAIR:AT5G14620
Locus tag: AT5G14620
See related: Araport:AT5G14620
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: AT5G14630; DMT7; domains rearranged methyltransferase 2; NA METHYLTRANSFERASE; T15N1.110; T15N1_110
Summary: A putative DNA methyltransferase with rearranged catalytic domains; similar to mammalian DNMT3 methyltransferases; contains UBA domains. The 3'-end proximal part of the gene coding region is highly methylated at both adenine and cytosine residues.
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Genomic context

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See DRM2 in Genome Data Viewer

Location:: chromosome: 5

Exon count:: 10

Sequence:: Chromosome: 5; NC_003076.8 (4715105..4718704, complement)

Chromosome 5 - NC_003076.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003076.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

DNA conformational dynamics in the context-dependent non-CG CHH methylation by plant methyltransferase DRM2.
Title: DNA conformational dynamics in the context-dependent non-CG CHH methylation by plant methyltransferase DRM2.
Contiguous and stochastic CHH methylation patterns of plant DRM2 and CMT2 revealed by single-read methylome analysis.
Title: Contiguous and stochastic CHH methylation patterns of plant DRM2 and CMT2 revealed by single-read methylome analysis.
The authors identified DEAD box RNA helicases U2AF56 Associated Protein 56 (UAP56a/b) as new DRM2 partners. They have shown that, similar to DRM2 and other RdDM actors, UAP56 has chromatin-associated protein properties.
Title: UAP56 associates with DRM2 and is localized to chromatin in Arabidopsis.
The drm1 drm2 cmt3 triple mutant of Arabidopsis thaliana have novel growth disorders and are efective both in maintenance and de novo DNA methylation, which highlights the correlation between DNA methylation and the auxin hormone pathway.
Title: Hypomethylated drm1 drm2 cmt3 mutant phenotype of Arabidopsis thaliana is related to auxin pathway impairment.
CHH methylation in the egg cell depends on DOMAINS REARRANGED METHYLASE 2 (DRM2) and RNA polymerase V (Pol V), two main actors of RNA-directed DNA methylation, but does not depend on Pol IV
Title: Live-cell analysis of DNA methylation during sexual reproduction in Arabidopsis reveals context and sex-specific dynamics controlled by noncanonical RdDM.
DRM2 gene expression throughout normal development in Arabidopsis
Title: [Developmental expression of Arabidopsis methyltransferase genes MET1, DRM2 and CMT3].
Study shows that Arabidopsis DRM2 exists in complex with the small interfering RNA (siRNA) effector ARGONAUTE4 (AGO4) and preferentially methylates one DNA strand, likely the strand acting as the template for RNA polymerase V-mediated noncoding RNA transcripts.
Title: Molecular mechanism of action of plant DRM de novo DNA methyltransferases.
These findings substantiate the view that DRM2 is the major de novo DNA methyltransferase in the RdDM pathway and support a direct catalytic role for this enzyme in RdDM.
Title: Genetic evidence that DNA methyltransferase DRM2 has a direct catalytic role in RNA-directed DNA methylation in Arabidopsis thaliana.
Data show that by site-directed mutagenesis that both the DRM2 N-terminal UBA domains and C-terminal methyltransferase domain are required for normal RNA-directed DNA methylation, supporting an essential targeting function for the UBA domains.
Title: The de novo cytosine methyltransferase DRM2 requires intact UBA domains and a catalytically mutated paralog DRM3 during RNA-directed DNA methylation in Arabidopsis thaliana.
JMJ14 is specifically involved in the maintenance phase of DRM2-mediated RNA-directed DNA methylation.
Title: Involvement of a Jumonji-C domain-containing histone demethylase in DRM2-mediated maintenance of DNA methylation.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_121466.3

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables DNA-methyltransferase activity	IGI Inferred from Genetic Interaction more info	PubMed
enables DNA-methyltransferase activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables N-methyltransferase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in DNA methylation-dependent constitutive heterochromatin formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within defense response to fungus	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within epigenetic regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in nucleoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	ISM Inferred from Sequence Model more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info	PubMed

General protein information

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Preferred Names: domains rearranged methyltransferase 2

NP_196966.2

domains rearranged methyltransferase 2 (DRM2); FUNCTIONS IN: N-methyltransferase activity; INVOLVED IN: DNA methylation, histone H3-K9 methylation; LOCATED IN: nucleus; EXPRESSED IN: 25 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Ubiquitin-associated/translation elongation factor EF1B, N-terminal, eukaryote (InterPro:IPR015940), DNA methylase, C-5 cytosine-specific (InterPro:IPR001525); BEST Arabidopsis thaliana protein match is: domains rearranged methylase 1 (TAIR:AT5G15380.1); Has 741 Blast hits to 627 proteins in 144 species: Archae - 0; Bacteria - 170; Metazoa - 285; Fungi - 0; Plants - 156; Viruses - 13; Other Eukaryotes - 117 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003076.8 Reference assembly

Range

4715105..4718704 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_121466.3 → NP_196966.2 domains rearranged methyltransferase 2 [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_196966.2

Status: REVIEWED

UniProtKB/Swiss-Prot

Q9LYJ7, Q9LYJ8, Q9M548

UniProtKB/TrEMBL

A0A5S9Y438, A0A654G103

Conserved Domains (3) summary

COG0270
Location:502 → 620

Dcm; Site-specific DNA-cytosine methylase [Replication, recombination and repair]

cd14330
Location:195 → 233

UBA_atDRM2_like; UBA domain found in Arabidopsis thaliana DNA (cytosine-5)-methyltransferase DRM2 (atDRM2) and similar proteins

pfam10440
Location:113 → 152

WIYLD; Ubiquitin-binding WIYLD domain